ArticleTissue antigens2011
A multi-site study using high-resolution HLA genotyping by next generation sequencing.
Article in Tissue antigens, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 41 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
41 citing papers in PubMed.
- Killer cell immunoglobulin-like receptor 3DL1 variation modifies HLA-B*57 protection against HIV-1.The Journal of clinical investigation · 2018Trial
- Article
- A walk through the development of human leukocyte antigen typing: from serologic techniques to next-generation sequencing.Clinical transplantation and research · 2024Review
- Identification of 8-Digit HLA-A, -B, -C, and -DRB1 Allele and Haplotype Frequencies in Koreans Using the One Lambda AllType Next-Generation Sequencing Kit.Annals of laboratory medicine · 2021Article
- High resolution HLA analysis reveals independent class I haplotypes and amino-acid motifs protective for multiple sclerosis.Genes and immunity · 2019Article
- Clinical features, biochemistry and HLA-DRB1 status in youth-onset type 1 diabetes in Pakistan.Diabetes research and clinical practice · 2019Article
- Epidemiology of childhood-onset type 1 diabetes in Azerbaijan: Incidence, clinical features, biochemistry, and HLA-DRB1 status.Diabetes research and clinical practice · 2018Article
- Differential Immunodominance Hierarchy of CD8Journal of virology · 2018Article
- HLA genotyping by next-generation sequencing of complementary DNA.BMC genomics · 2017Article
- Genetic barriers in transplantation medicine.World journal of transplantation · 2016Review
- HLA Haplotype Validator for quality assessments of HLA typing.Human immunology · 2016Article
- MHC class II super-enhancer increases surface expression of HLA-DR and HLA-DQ and affects cytokine production in autoimmune vitiligo.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- The impact of next-generation sequencing technologies on HLA research.Journal of human genetics · 2015Review
- Development of a high-resolution NGS-based HLA-typing and analysis pipeline.Nucleic acids research · 2015Article
- Impact of three Illumina library construction methods on GC bias and HLA genotype calling.Human immunology · 2015Article
- HLA Typing for the Next Generation.PloS one · 2015Article
- Integrating mapping-, assembly- and haplotype-based approaches for calling variants in clinical sequencing applications.Nature genetics · 2014Article
- Human APOBEC3 induced mutation of human immunodeficiency virus type-1 contributes to adaptation and evolution in natural infection.PLoS pathogens · 2014Article
- Making the genomic leap in HCT: application of second-generation sequencing to clinical advances in hematopoietic cell transplantation.European journal of human genetics : EJHG · 2014Review
- Association of Parkinson disease with structural and regulatory variants in the HLA region.American journal of human genetics · 2013Article
Corrections and comments
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Authors and funding
26 authors.
Funding
Abstract
The high degree of polymorphism at human leukocyte antigen (HLA) class I and class II loci makes high-resolution HLA typing challenging. Current typing methods, including Sanger sequencing, yield ambiguous typing results because of incomplete genomic coverage and inability to set phase for HLA allele determination. The 454 Life Sciences Genome Sequencer (GS FLX) next generation sequencing system coupled with conexio atf software can provide very high-resolution HLA genotyping. High-throughput genotyping can be achieved by use of primers with multiplex identifier (MID) tags to allow pooling of the amplicons generated from different individuals prior to sequencing. We have conducted a double-blind study in which eight laboratory sites performed amplicon sequencing using GS FLX standard chemistry and genotyped the same 20 samples for HLA-A, -B, -C, DPB1, DQA1, DQB1, DRB1, DRB3, DRB4, and DRB5 (DRB3/4/5) in a single sequencing run. The average sequence read length was 250 base pairs and the average number of sequence reads per amplicon was 672, providing confidence in the allele assignments. Of the 1280 genotypes considered, assignment was possible in 95% of the cases. Failure to assign genotypes was the result of researcher procedural error or the presence of a novel allele rather than a failure of sequencing technology. Concordance with known genotypes, in cases where assignment was possible, ranged from 95.3% to 99.4% for the eight sites, with overall concordance of 97.2%. We conclude that clonal pyrosequencing using the GS FLX platform and CONEXIO ATF software allows reliable identification of HLA genotypes at high resolution.
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Registered trials
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